Locus 1340

Sequence ID 3R_DroMel_CAF1
Location 3,952,408 – 3,952,527
Length 119
Max. P 0.660648
window2192

overview

Window 2

Location 3,952,408 – 3,952,527
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.55
Mean single sequence MFE -33.73
Consensus MFE -18.01
Energy contribution -19.35
Covariance contribution 1.34
Combinations/Pair 1.20
Mean z-score -1.75
Structure conservation index 0.53
SVM decision value 0.27
SVM RNA-class probability 0.660648
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3952408 119 + 27905053
GCAGAUCCCGACCAGAAACACACCUGCCCCA-GGAUGUUGGCCCUCAUCAACAGGAUCCUCGAGUGGUUCAAGAGCAUCUUCUGGAAAGAGGAGAUGGAACUCACGCUAGUGGGGCUGCA
((((.((((((((.........((((...))-)).((((((......)))))))).))((.(.(((((((.......((((((....))))))....)))).))).).)).)))))))). ( -38.80)
>DroVir_CAF1 20374 106 + 1
----------AUU---AACAAAACAGAAGAA-UCAUGCUGGCGCUUAUCAACAGAAUCCUGGACUGGUUUAAGAGCAUCUUCUGGAAAGAGGAGAUGGAACUGACGCUGGUCGGCUUGCA
----------...---...............-...(((.(((.........(((....)))(((..((...((..((((((((......))))))))...))...))..))).))).))) ( -27.10)
>DroPse_CAF1 19273 112 + 1
AAAAAGCCC-------AAUAGAACAGUGCAA-AUAUGUUGGCACUCAUAAACAGAAUCCUGGACUGGUUCAAGAGCAUCUUCUGGAAAGAGGAGAUGGAACUGACGCUAGUGGGGCUGCA
....(((((-------........(((((..-........)))))......(((....))).(((((((((....((((((((......))))))))....))).)))))).)))))... ( -32.50)
>DroGri_CAF1 18707 107 + 1
----------CAA---AAAAAAACAGCAUAAAUAAUGUUGGCGCUUAUCAACAGAAUCCUGGAUUGGUUCAAGGGCAUCUUCUGGAAAGAAGAAAUGGAACUGACGCUAGUCGGACUGCA
----------...---.......((((((.....))))))((.(((((((.(((....)))...))))..))).)).((((((....)))))).......(((((....)))))...... ( -28.00)
>DroYak_CAF1 21199 119 + 1
GUAGAUCCCGACCAGAAACACACCUGCCCCA-GGAUGUUGGCCCUCAUAAACAGGAUCCUCGAGUGGUUCAAGAGCAUCUUCUGGAAAGAGGAGAUGGAGCUCACGCUGGUGGGACUGCA
((((.((((.(((((......(((.((.(.(-((((.(((...........))).))))).).)))))....((((.((((((....))))))......))))...))))))))))))). ( -43.70)
>DroMoj_CAF1 21002 108 + 1
--------CAAUU---AACAAAACAGAAUAA-AGAUGUUGGCGCUUAUCAACAGGAUUCUGGACUGGUUCAAGAGCAUCUUCUGGAAAGAGGAGAUGGAGCUGACGCUUGUCGGCCUCCA
--------.....---..((...((((((..-...((((((......))))))..))))))...))(((....))).((((((....))))))..((((((((((....))))).))))) ( -32.30)
>consensus
________C_ACC___AACAAAACAGCACAA_AGAUGUUGGCGCUCAUCAACAGAAUCCUGGACUGGUUCAAGAGCAUCUUCUGGAAAGAGGAGAUGGAACUGACGCUAGUCGGACUGCA
...................................((((((......))))))(((.((......)))))....(((((((((....)))))).......(((((....)))))..))). (-18.01 = -19.35 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:11 2006